New flywheel bolts and miscellaneous parts. The flywheel bolts for a manual are longer compared to the autos.

Miscellaneous shifter linkage parts etc..

New radiator mounting plate, and new shift knob.

Used flex disc (I got lucky and it came with the 2nd transmission I bought and was in pretty good condition so this saved me from buying a new one.)

Step 6:

Installing new clutch and brake pedals. This is the part I spoke of in the beginning of removing the seat before you disconnected the battery granted you have power seats that is. It makes it so much easier by being able to lie down while installing the new pedal system.

Old Pedals

Removing covering

You can see in this picture where the hose from the brake fluid reservoir comes through the firewall and where the new clutch master cylinder mounts.